Project name: AAV4_1mer_M4

Status: done

Started: 2026-10-21 19:29:46
Settings
Chain sequence(s) GVGNASGDWHCDSTWSEGHVTTTSTRTWVLPTYNNHLYKRLGESLQSNTYNGFSTPWGYFDFNRFHCHFSPRDWQRLINNNWGMRPKAMRVKIFNIQVKEVTTSNGETTVANNLTSTVQIFADSSYELPYVMDAGQEGSLPPFPNDVFMVPQYGYCGLVTGNTSQQQTDRNAFYCLEYFPSQMLRTGNNFEITYSFEKVPFHSMYAHSQSLDRLMNPLIDQYLWGLQSTTTGTTLNAGTATTNFTKLRPTNFSNFKKNWLPGPSIKQQGFSKTANQNYKIPATGSDSLIKYETHSTLDGRWSALTPGPPMATAGPADSKFSNSQLIFAGPKQNGNTATVPGTLIFTSEEELAATNATDTDMWGNLPGGDQSNSNLPTVDRLTALGAVPGMVWQNRDIYYQGPIWAKIPHTDGHFHPSPLIGGFGLKHPPPQIFIKNTPVPANPATTFSSTPVNSFITQYSTGQVSVQIDWEIQKERSKRWNPEVQFTSNYGQQNSLLWAPDAAGKYTEPRAIGTRYLTHHL input PDB
Selected Chain(s) A
Distance of aggregation 10 Å
FoldX usage Yes
pH calculations Yes
Dynamic mode No
Automated mutations No
Downloads Download all the data
Simulation log
[INFO]       Logger:   Verbosity set to: 2 - [INFO]                                                (00:00:01)
[WARNING]    runJob:   Working directory already exists (possibly overwriting previous results -ow 
                       to prevent this behavior)                                                   (00:00:01)
[INFO]       runJob:   Starting aggrescan3d job on: input.pdb with A chain(s) selected             (00:00:01)
[INFO]       runJob:   Creating pdb object from: input.pdb                                         (00:00:01)
[INFO]       PDB-Info: The input structure is globular. Max score is recommended for pH analysis.  (00:00:22)
[INFO]       FoldX:    Starting FoldX energy minimization                                          (00:00:22)
[INFO]       Analysis: Starting Aggrescan4D on folded.pdb                                          (00:06:48)
[INFO]       agg3D:    Running pKa-ANI on                                                          
                       /STORAGE/DATA/lcbio/aggreskan/b1eaa92bd15da5/tmp/folded.pdb                 (00:06:48)
[INFO]       Main:     Simulation completed successfully.                                          (00:15:16)
Show buried residues

Minimal score value
-2.859
Maximal score value
1.7259
Average score
-0.5029
Total score value
-261.9921

The table below lists A3D score for protein residues. Residues with A3D score > 0.0000 are marked by yellow rows.

residue index residue name chain Aggrescan3D score mutation
residue index residue name chain Aggrescan3D score
mutation
18 G A -0.4265
19 V A 0.7611
20 G A -0.4041
21 N A -1.2412
22 A A -1.0796
23 S A -1.0907
24 G A -1.4048
25 D A -1.6633
26 W A -0.5993
27 H A -1.3731
28 C A -1.0871
29 D A -1.8821
30 S A -1.0264
31 T A -0.5674
32 W A -0.6225
33 S A -1.2068
34 E A -2.2829
35 G A -1.6394
36 H A -1.5651
37 V A 0.0000
38 T A -0.7997
39 T A 0.0000
40 T A -1.0440
41 S A 0.0000
42 T A 0.0000
43 R A 0.0000
44 T A 0.2780
45 W A 0.0000
46 V A 1.0176
47 L A 0.0000
48 P A 0.1056
49 T A -0.2237
50 Y A -0.1832
51 N A -0.5693
52 N A -1.0910
53 H A -0.2346
54 L A 0.5067
55 Y A -0.0099
56 K A -1.2462
57 R A -1.1720
58 L A -0.6536
59 G A -1.0893
60 E A -1.6586
61 S A -1.3173
62 L A -0.8704
63 Q A -1.7320
64 S A -1.2056
65 N A -1.6695
66 T A 0.0000
67 Y A -0.2716
68 N A 0.0000
69 G A 0.0000
70 F A -0.0483
71 S A -0.3333
72 T A 0.0000
73 P A 0.0000
74 W A 0.0000
75 G A 0.0000
76 Y A 0.0000
77 F A 0.0000
78 D A 0.0000
79 F A 0.0000
80 N A 0.0000
81 R A -0.6784
82 F A 0.0000
83 H A 0.0000
84 C A 0.0000
85 H A 0.0000
86 F A 0.0000
87 S A -1.0760
88 P A -1.2870
89 R A -2.4260
90 D A 0.0000
91 W A 0.0000
92 Q A -2.0726
93 R A -2.4395
94 L A 0.0000
95 I A 0.0000
96 N A -0.9734
97 N A -1.7178
98 N A 0.0000
99 W A -0.7348
100 G A 0.0000
101 M A 0.0000
102 R A -1.2216
103 P A 0.0000
104 K A -2.1415
105 A A -1.3526
106 M A 0.0000
107 R A -1.8777
108 V A 0.0000
109 K A -1.2804
110 I A 0.0000
111 F A 0.0000
112 N A -1.1551
113 I A 0.0000
114 Q A -0.9025
115 V A 0.0000
116 K A -0.4570
117 E A -0.0645
118 V A 0.4711
119 T A -0.0593
120 T A -0.9865
121 S A -1.6388
122 N A -2.1917
123 G A -2.0704
124 E A -2.5870
125 T A -0.9841
126 T A 0.0723
127 V A 1.0509
128 A A 0.0449
129 N A -1.0448
130 N A -0.4993
131 L A 0.5087
132 T A 0.1717
133 S A 0.0000
134 T A 0.0000
135 V A 0.0000
136 Q A -0.6203
137 I A 0.0000
138 F A 0.0000
139 A A -0.2224
140 D A 0.0000
141 S A -0.6190
142 S A -0.8960
143 Y A -1.0499
144 E A -1.7025
145 L A 0.0000
146 P A -0.1048
147 Y A -0.0607
148 V A 0.0908
149 M A 0.0000
150 D A -0.5863
151 A A -0.7630
152 G A -1.4401
153 Q A -2.3303
154 E A -2.5561
155 G A -1.2014
156 S A -0.8639
157 L A 0.0000
158 P A -0.3768
159 P A -0.4571
160 F A -0.5327
161 P A -0.7445
162 N A -1.5644
163 D A -1.4917
164 V A 0.9865
165 F A 0.9441
166 M A 1.3119
167 V A 0.0000
168 P A -0.4259
169 Q A -0.3842
170 Y A 0.0000
171 G A -0.1927
172 Y A 0.0000
173 C A 0.9069
174 G A 0.6642
175 L A 0.1366
176 V A 0.0000
177 T A -0.8233
178 G A -1.2122
179 N A -1.4462
180 T A -1.2143
181 S A -1.1394
182 Q A -1.4324
183 Q A -1.6662
184 Q A -1.7002
185 T A -1.9562
186 D A -2.7529
187 R A -2.5496
188 N A -1.2128
189 A A 0.3292
190 F A 1.7259
191 Y A 1.2871
192 C A 0.9700
193 L A 0.0000
194 E A -0.3279
195 Y A 0.9744
196 F A 0.1477
197 P A -0.2941
198 S A -0.6523
199 Q A -1.2006
200 M A -0.6177
201 L A 0.0000
202 R A -1.1206
203 T A -0.9217
204 G A -0.9183
205 N A -1.3957
206 N A -1.5987
207 F A -0.9598
208 E A -1.3483
209 I A -0.6799
210 T A -0.8157
211 Y A -0.5784
212 S A -1.2094
213 F A 0.0000
214 E A -2.0880
215 K A -2.2847
216 V A 0.0000
217 P A -0.5674
218 F A -0.2180
219 H A -0.1420
220 S A -0.1009
221 M A 0.0000
222 Y A -0.0304
223 A A -0.3825
224 H A -0.4803
225 S A -0.7231
226 Q A -1.0243
227 S A -0.9082
228 L A 0.0000
229 D A -1.8280
230 R A -1.6374
231 L A -0.6732
232 M A -0.5275
233 N A -0.3959
234 P A 0.0981
235 L A 1.5351
236 I A 1.5280
237 D A 0.1066
238 Q A 0.0860
239 Y A 1.3939
240 L A 0.7840
241 W A 1.1725
242 G A 0.5247
243 L A 0.8061
244 Q A -0.5073
245 S A -0.4192
246 T A -0.3179
247 T A -0.6716
248 T A -0.6277
249 G A -0.6111
250 T A -0.2084
251 T A 0.1112
252 L A 0.9171
253 N A -0.6194
254 A A -0.4647
255 G A -0.6931
256 T A -0.5333
257 A A -0.5949
258 T A -0.2480
259 T A -0.1803
260 N A -0.2896
261 F A 1.4788
262 T A 0.3868
263 K A -0.1190
264 L A 0.0000
265 R A -1.2986
266 P A -0.5552
267 T A -0.7204
268 N A -1.2114
269 F A -1.4117
270 S A -1.4131
271 N A -1.9760
272 F A 0.0000
273 K A -2.4006
274 K A -2.3264
275 N A -1.7143
276 W A -0.2873
277 L A 0.4735
278 P A 0.5167
279 G A 0.0000
280 P A 0.4479
281 S A 0.0000
282 I A 0.4900
283 K A -0.5495
284 Q A 0.0000
285 Q A -0.9290
286 G A -0.8458
287 F A -0.2970
288 S A -1.0241
289 K A -0.8927
290 T A -0.8752
291 A A -0.9303
292 N A -1.9916
293 Q A -1.9999
294 N A -1.0729
295 Y A -0.0430
296 K A -1.2751
297 I A -0.3254
298 P A -0.3768
299 A A -0.1724
300 T A -0.4388
301 G A -0.9431
302 S A -0.9981
303 D A -1.2162
304 S A -0.4888
305 L A 0.1264
306 I A 0.2940
307 K A -0.5306
308 Y A 0.0046
309 E A -0.3336
310 T A -0.2119
311 H A -0.0855
312 S A 0.1420
313 T A 0.1206
314 L A 0.4009
315 D A -1.3831
316 G A -1.1341
317 R A -0.9829
318 W A -0.2406
319 S A -0.0210
320 A A 0.0237
321 L A 0.1545
322 T A 0.0598
323 P A 0.0000
324 G A 0.0000
325 P A 0.2948
326 P A 0.2006
327 M A 0.0000
328 A A 0.0000
329 T A 0.0000
330 A A -1.1412
331 G A -1.2719
332 P A -0.9286
333 A A -0.9152
334 D A -1.7823
335 S A -1.4280
336 K A -1.3935
337 F A -0.5687
338 S A 0.0000
339 N A -0.2486
340 S A 0.0000
341 Q A 0.0000
342 L A 0.0000
343 I A 1.3782
344 F A 0.8992
345 A A -0.3090
346 G A -0.6909
347 P A -1.3877
348 K A -2.2225
349 Q A -1.7104
350 N A -2.3410
351 G A -1.7544
352 N A -1.8329
353 T A -0.8692
354 A A -0.1021
355 T A 0.6959
356 V A 1.5407
357 P A 0.6685
358 G A -0.0950
359 T A -0.3610
360 L A 0.5320
361 I A 0.5127
362 F A 0.0000
363 T A 0.0000
364 S A -0.6890
365 E A 0.0000
366 E A -2.0075
367 E A -1.1690
368 L A 0.0000
369 A A -0.5970
370 A A -0.6230
371 T A 0.0000
372 N A 0.0000
373 A A -0.1773
374 T A -0.7545
375 D A 0.0000
376 T A -1.1009
377 D A -1.9419
378 M A -1.0559
379 W A -0.3964
380 G A -0.8947
381 N A -1.3230
382 L A -0.4699
383 P A -1.0500
384 G A -1.4759
385 G A -1.7868
386 D A -2.8262
387 Q A -2.7103
388 S A -2.1020
389 N A -1.9686
390 S A -1.3762
391 N A -1.9315
392 L A -0.1871
393 P A -0.7056
394 T A -0.2752
395 V A 0.0754
396 D A -2.1006
397 R A -2.5698
398 L A -1.0739
399 T A -0.8405
400 A A 0.0021
401 L A 0.4133
402 G A 0.0094
403 A A 0.4734
404 V A 0.6262
405 P A 0.1949
406 G A -0.1189
407 M A 0.5908
408 V A 1.0137
409 W A 0.5892
410 Q A 0.0000
411 N A -0.2165
412 R A 0.0000
413 D A 0.0000
414 I A 0.0000
415 Y A 0.0000
416 Y A 0.0000
417 Q A 0.0000
418 G A 0.0000
419 P A -0.4602
420 I A 0.0000
421 W A 0.0000
422 A A -0.4770
423 K A -1.1553
424 I A 0.0000
425 P A -1.4582
426 H A -1.9382
427 T A -1.7872
428 D A -2.4379
429 G A -1.4949
430 H A -0.7570
431 F A 1.1670
432 H A 0.0871
433 P A -0.2295
434 S A -0.0056
435 P A 0.2316
436 L A 0.9399
437 I A 0.7909
438 G A 0.0000
439 G A -0.0368
440 F A 0.0000
441 G A -0.7504
442 L A 0.0000
443 K A -2.1023
444 H A -1.8093
445 P A 0.0000
446 P A 0.0000
447 P A 0.0000
448 Q A 0.0000
449 I A 0.0000
450 F A 0.0000
451 I A 0.0000
452 K A 0.0000
453 N A 0.0000
454 T A 0.0757
455 P A 0.0385
456 V A 0.4161
457 P A 0.0422
458 A A -0.3248
459 N A -1.2727
460 P A -0.5365
461 A A 0.1212
462 T A 0.1219
463 T A 0.7649
464 F A 1.7110
465 S A 0.7262
466 S A 0.2336
467 T A 0.0984
468 P A 0.0359
469 V A 0.7119
470 N A -0.6585
471 S A -0.4961
472 F A 0.1382
473 I A 0.5874
474 T A 0.1471
475 Q A 0.0000
476 Y A 0.3501
477 S A 0.0000
478 T A 0.1611
479 G A 0.0000
480 Q A -0.3660
481 V A 0.0000
482 S A -0.8775
483 V A 0.0000
484 Q A -1.2330
485 I A 0.0000
486 D A -1.3184
487 W A 0.0000
488 E A -1.5753
489 I A 0.0000
490 Q A -1.8481
491 K A -2.1495
492 E A -2.1204
493 R A -2.8590
494 S A -2.1732
495 K A -2.3772
496 R A -1.7742
497 W A -0.3075
498 N A -1.1134
499 P A -0.5569
500 E A 0.0013
501 V A 1.1861
502 Q A 0.0589
503 F A 0.0000
504 T A -0.5011
505 S A -0.8737
506 N A -1.5277
507 Y A -0.8081
508 G A -1.3877
509 Q A -2.0081
510 Q A -1.6825
511 N A -1.6826
512 S A -0.4899
513 L A 0.8507
514 L A 0.6905
515 W A 0.3117
516 A A 0.1730
517 P A -0.7231
518 D A -1.1055
519 A A -0.7096
520 A A -0.8650
521 G A -1.4492
522 K A -2.2096
523 Y A -1.2063
524 T A -0.7992
525 E A -0.2243
526 P A -0.3919
527 R A -0.3919
528 A A -0.0669
529 I A 0.0000
530 G A -0.0803
531 T A 0.0000
532 R A 0.0000
533 Y A 0.4433
534 L A 0.0000
535 T A -0.2078
536 H A -1.1180
537 H A -0.6423
538 L A 0.5746
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Calculations for various pH values

This page contains details and comparisons for all models calculated at different pH points.

pH
Average A3D Score
Max A3D Score
4.0 -0.0854 4.454 View CSV PDB
4.5 -0.1214 4.4545 View CSV PDB
5.0 -0.1637 4.4559 View CSV PDB
5.5 -0.2041 4.46 View CSV PDB
6.0 -0.2348 4.471 View CSV PDB
6.5 -0.2513 4.4945 View CSV PDB
7.0 -0.2558 4.5316 View CSV PDB
7.5 -0.2534 4.5774 View CSV PDB
8.0 -0.247 4.627 View CSV PDB
8.5 -0.2364 4.6778 View CSV PDB
9.0 -0.22 4.7289 View CSV PDB